Citrus Sinensis ID: 046317

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120
Protein Sequence
MAPMRLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRHHPPKNN
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHccccHHHHHHccccccccccccccEEEEEEEEEEEcccEEEEEccEEEEccccHHHcHHHHHHcccHHcccccccccccccEEEEcccccccccccccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHHHHHHHHcHcHHHEEccccccccEEcccccEEEEEEEEEEcccHHEEEEEEEccccccEEEEcccccHcccccccEEcccccccEEEEEEcccccccccccccc
Coil and Loop (DISEMBL)
MAPMRLKSRLIVLFLLMALLSNAHFYQAAEVAgvsrrkgvfngeSVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCKKNnaaasrkvsedgddkeFVAFsadyraprhhppknn
Flexible Loop (DISEMBL)
MAPMRLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAidqtilagrKMAVVKQRCYEKGKKvvahaklckknnaaasrkvsedgdDKEFVAfsadyraprhhppknn
Low Complexity Region (SEG)
MAPMRLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRHHPPKNN
Disordered region (IsUnstruct)
*******SRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCK*************************************
Disordered Region (DISOPRED)
******KSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGR**************************************DDKEFVAFSAD************
Disordered Region (DISEMBL)
MAPMRLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCKKN************DDKEFVAFSADYRA*********
Disordered Region (DISPRO)
****RLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRH******
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
SSSSSSSSSSSSSSSSSSSSSSSSSooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
SSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MAPMRLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCYEKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRHHPPKNN
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	120	2.2.26 [Sep-21-2011]
Q6ID76	110	Root meristem growth fact	yes	no	0.466	0.509	0.362	0.0005

>sp|Q6ID76|RGF3_ARATH Root meristem growth factor 3 OS=Arabidopsis thaliana GN=rgf3 PE=2 SV=1

 Score = 43.1 bits (100), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 25/69 (36%), Positives = 37/69 (53%), Gaps = 13/69 (18%)

Query: 55  ILAGRKMAVVKQRCYEKGKKVVAHAKLCKKNNAA---ASRKVSEDGDDKEFVAFSADYRA 111
           ++ GRK+ +        G+K  A  K+ + N      +S+ V EDG     VA++ADY  
Sbjct: 52  MIRGRKLMMAS------GEKEEAETKMKRGNRETERNSSKSVEEDG----LVAYTADYWR 101

Query: 112 PRHHPPKNN 120
            +HHPPKNN
Sbjct: 102 AKHHPPKNN 110

Maintains the postembryonic root stem cell niche.
Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	120
224101637	140	predicted protein [Populus trichocarpa]	0.975	0.835	0.280	0.0003
357516867	92	hypothetical protein MTR_8g066030 [Medic	0.725	0.945	0.303	0.0004

>gi|224101637|ref|XP_002312363.1| predicted protein [Populus trichocarpa] gi|222852183|gb|EEE89730.1| predicted protein [Populus trichocarpa]

 Score = 49.3 bits (116), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 39/139 (28%), Positives = 64/139 (46%), Gaps = 22/139 (15%)

Query: 2   APMRLKSRLIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKM 61
           +P++    L++L    A L++A  +   EV   S  + + +G+ +V  +I +  + GRK+
Sbjct: 4   SPVKFTCLLLLLLFTSAWLNSARAHPTVEVDTFSSERIIVDGDGMVTTSIKK--IGGRKV 61

Query: 62  AVVKQRCYEKGKKVVAHAKLCKKNNA--------AASRKVSEDGDDKE------------ 101
                      K  VAH    + ++A           R+V + G+ +             
Sbjct: 62  VRAHNIKRPDIKGNVAHGGTSRISSANDQVVGKYGYEREVMDIGNKRNGGRFPEGVKESG 121

Query: 102 FVAFSADYRAPRHHPPKNN 120
           FVAF+ADY  PRHHPPKNN
Sbjct: 122 FVAFNADYHEPRHHPPKNN 140

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357516867|ref|XP_003628722.1| hypothetical protein MTR_8g066030 [Medicago truncatula] gi|355522744|gb|AET03198.1| hypothetical protein MTR_8g066030 [Medicago truncatula]

 Score = 48.5 bits (114), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 34/112 (30%), Positives = 50/112 (44%), Gaps = 25/112 (22%)

Query: 10  LIVLFLLMALLSNAHFYQAAEVAGVSRRKGVFNGESVVVVAIDQTILAGRKMAV-VKQRC 68
           ++++ L  + LSNA  +      GV    G+ + ++ V  AID     G+  +V    R 
Sbjct: 4   ILLVLLCASWLSNARLHPQG---GVVEVNGISSTKANVTTAID-----GKNESVNSPSRS 55

Query: 69  YEKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRHHPPKNN 120
              GK+ +                 +   DD  FVAF+ DY  PRHHPPKNN
Sbjct: 56  SFHGKRSLR----------------THLSDDSGFVAFTTDYHPPRHHPPKNN 91

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	120
TAIR|locus:2827444	110	RGF3 "AT2G04025" [Arabidopsis	0.858	0.936	0.288	2.1e-06
TAIR|locus:2009982	109	RGF2 "AT1G13620" [Arabidopsis	0.466	0.513	0.393	3.9e-05

TAIR|locus:2827444 RGF3 "AT2G04025" [Arabidopsis thaliana (taxid:3702)]

 Score = 109 (43.4 bits), Expect = 2.1e-06, P = 2.1e-06
 Identities = 32/111 (28%), Positives = 54/111 (48%)

Query:    11 IVLFLLMALLSNAHFYQAAEVAGV-SRRKGVFNGESVVVVAIDQTILAGRKMAVVKQRCY 69
             I+  L++ LL  +  Y   E     S R  V   +++    + + ++ GRK+ +      
Sbjct:     7 ILCVLIILLLCFSFRYSLHEDGNQQSSRDFVSTAKAIKYGDVMKKMIRGRKLMMAS---- 62

Query:    70 EKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRHHPPKNN 120
               G+K  A  K+ K+ N    R  S+  ++   VA++ADY   +HHPPKNN
Sbjct:    63 --GEKEEAETKM-KRGNRETERNSSKSVEEDGLVAYTADYWRAKHHPPKNN 110

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0005615 "extracellular space" evidence=ISS

GO:0008083 "growth factor activity" evidence=IDA

GO:0008284 "positive regulation of cell proliferation" evidence=IDA

GO:0010082 "regulation of root meristem growth" evidence=IGI

GO:0010628 "positive regulation of gene expression" evidence=IEP

GO:0030154 "cell differentiation" evidence=IDA

TAIR|locus:2009982 RGF2 "AT1G13620" [Arabidopsis thaliana (taxid:3702)]

 Score = 97 (39.2 bits), Expect = 3.9e-05, P = 3.9e-05
 Identities = 24/61 (39%), Positives = 31/61 (50%)

Query:    60 KMAVVKQRCYEKGKKVVAHAKLCKKNNAAASRKVSEDGDDKEFVAFSADYRAPRHHPPKN 119
             K A V+ R  ++  K     K+  K        V E+ D    VA++ADY  PRHHPPKN
Sbjct:    54 KKAQVRGRSGQEFSKETT--KMMMKKTTKKETNVEEEDD---LVAYTADYWKPRHHPPKN 108

Query:   120 N 120
             N
Sbjct:   109 N 109


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.321   0.132   0.374    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      120       120   0.00091  102 3  11 22  0.45    30
                                                     29  0.48    32


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  531 (57 KB)
  Total size of DFA:  109 KB (2074 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  12.47u 0.15s 12.62t   Elapsed:  00:00:01
  Total cpu time:  12.47u 0.15s 12.62t   Elapsed:  00:00:01
  Start:  Sat May 11 06:47:34 2013   End:  Sat May 11 06:47:35 2013

GO:0003674 "molecular_function" evidence=ND

GO:0005576 "extracellular region" evidence=ISM

GO:0005615 "extracellular space" evidence=ISS

GO:0008083 "growth factor activity" evidence=IDA

GO:0008284 "positive regulation of cell proliferation" evidence=IDA

GO:0010082 "regulation of root meristem growth" evidence=IGI

GO:0030154 "cell differentiation" evidence=IDA

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Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

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Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

No hit with probability above 80.00

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Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

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Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

No hit with probability above 80.00